Package | Description |
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com.compomics.util.experiment.identification.protein_inference.fm_index |
Protein sequence database indexing classes based on Burrows-Wheeler transform.
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Modifier and Type | Field and Description |
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MatrixContent |
MatrixContent.previousContent
Index of the originating entry of a particular cell with the pattern
searching matrix.
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Constructor and Description |
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MatrixContent(int left,
int right,
int character,
MatrixContent previousContent,
double mass,
int length,
int numX,
int modifictationPos,
int[] numSpecificVariants,
char variant,
String allVariants)
Constructor.
|
MatrixContent(int left,
int right,
int character,
MatrixContent previousContent,
double mass,
int length,
int numX,
int modifictationPos,
int numVariants,
char variant,
String allVariants)
Constructor.
|
MatrixContent(int left,
int right,
int character,
MatrixContent previousContent,
double mass,
int length,
int numX,
int modifictationPos,
int ambiguousChar,
int tagComponent)
Constructor.
|
MatrixContent(int left,
int right,
int character,
MatrixContent previousContent,
double mass,
String peptideSequence,
int length,
int numX,
ModificationMatch modification,
ArrayList<ModificationMatch> modifications,
int modifictationPos,
int[] numSpecificVariants,
char variant,
String allVariants)
Constructor.
|
MatrixContent(int left,
int right,
int character,
MatrixContent previousContent,
double mass,
String peptideSequence,
int length,
int numX,
ModificationMatch modification,
ArrayList<ModificationMatch> modifications,
int modifictationPos,
int numVariants,
char variant,
String allVariants)
Constructor.
|
MatrixContent(int left,
int right,
int character,
MatrixContent previousContent,
double mass,
String peptideSequence,
String peptideSequenceSearch,
int length,
int numX,
int tagComponent,
ModificationMatch modification,
ArrayList<ModificationMatch> modifications,
int modifictationPos)
Constructor.
|
MatrixContent(int left,
int right,
int character,
MatrixContent previousContent,
double mass,
String peptideSequence,
String peptideSequenceSearch,
int length,
int numX,
ModificationMatch modification,
ArrayList<ModificationMatch> modifications,
int modifictationPos,
int ambiguousChar)
Constructor.
|
MatrixContent(int left,
int right,
int character,
MatrixContent previousContent,
int numX)
Constructor for simple sequence mapping.
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MatrixContent(int left,
int right,
int character,
MatrixContent previousContent,
int numX,
double mass,
int length)
Constructor for simple tag mapping.
|
MatrixContent(int left,
int right,
int character,
MatrixContent previousContent,
int numX,
double mass,
int length,
String peptideSequence)
Constructor for simple tag mapping with peptide sequence.
|
MatrixContent(int left,
int right,
int character,
MatrixContent previousContent,
int numX,
int length,
int[] numSpecificVariants,
char variant)
Constructor for sequence with variants.
|
MatrixContent(int left,
int right,
int character,
MatrixContent previousContent,
int numX,
int length,
int numVariants,
char variant)
Constructor for sequence with variants.
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MatrixContent(MatrixContent foreign)
Copy constructor.
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